HEADER OXIDOREDUCTASE 30-OCT-14 3X16 TITLE CRYSTAL STRUCTURE OF THE CATALASE-PEROXIDASE KATG W78F MUTANT FROM TITLE 2 SYNECHOCOCCUS ELONGATUS PCC7942 COMPND MOL_ID: 1; COMPND 2 MOLECULE: CATALASE-PEROXIDASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CATALASE-PEROXIDASE (KATG); COMPND 5 SYNONYM: CP, PEROXIDASE/CATALASE; COMPND 6 EC: 1.11.1.21; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SYNECHOCOCCUS ELONGATUS PCC 7942; SOURCE 3 ORGANISM_TAXID: 1140; SOURCE 4 STRAIN: PCC7942; SOURCE 5 GENE: KATG, SYNPCC7942_1656; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET3A KEYWDS PEROXIDASE, CATALASE SUBFAMILY, OXIDOREDUCTASE, HEME B FE, CROSS- KEYWDS 2 LINK, TRP-TYR-MET ADDUCT EXPDTA X-RAY DIFFRACTION AUTHOR T.TADA,K.WADA,S.KAMACHI REVDAT 3 24-AUG-22 3X16 1 JRNL REMARK SEQADV LINK REVDAT 2 22-NOV-17 3X16 1 REMARK REVDAT 1 24-DEC-14 3X16 0 JRNL AUTH S.KAMACHI,K.HIRABAYASHI,M.TAMOI,S.SHIGEOKA,T.TADA,K.WADA JRNL TITL CRYSTAL STRUCTURE OF THE CATALASE-PEROXIDASE KATG W78F JRNL TITL 2 MUTANT FROM SYNECHOCOCCUS ELONGATUS PCC7942 IN COMPLEX WITH JRNL TITL 3 THE ANTITUBERCULAR PRO-DRUG ISONIAZID. JRNL REF FEBS LETT. V. 589 131 2015 JRNL REFN ISSN 0014-5793 JRNL PMID 25479089 JRNL DOI 10.1016/J.FEBSLET.2014.11.037 REMARK 2 REMARK 2 RESOLUTION. 2.65 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0032 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.33 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 33798 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.200 REMARK 3 R VALUE (WORKING SET) : 0.197 REMARK 3 FREE R VALUE : 0.254 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1784 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.65 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.72 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2439 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.46 REMARK 3 BIN R VALUE (WORKING SET) : 0.2980 REMARK 3 BIN FREE R VALUE SET COUNT : 119 REMARK 3 BIN FREE R VALUE : 0.4190 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5579 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 46 REMARK 3 SOLVENT ATOMS : 155 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 49.29 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.391 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.284 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.195 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.744 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.945 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.913 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5785 ; 0.017 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 5320 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7878 ; 1.917 ; 1.950 REMARK 3 BOND ANGLES OTHERS (DEGREES): 12214 ; 0.913 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 709 ; 7.240 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 283 ;36.486 ;24.205 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 901 ;18.303 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 41 ;20.006 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 820 ; 0.097 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6692 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1370 ; 0.005 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2839 ; 3.917 ; 4.805 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2838 ; 3.916 ; 4.803 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3547 ; 5.790 ; 7.196 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES REMARK 4 REMARK 4 3X16 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 07-NOV-14. REMARK 100 THE DEPOSITION ID IS D_1000097048. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-OCT-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.3 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL38B1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX225HE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35801 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.650 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 12.00 REMARK 200 R MERGE (I) : 0.16200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.65 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.74 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.4 REMARK 200 DATA REDUNDANCY IN SHELL : 11.10 REMARK 200 R MERGE FOR SHELL (I) : 0.49100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 66.89 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.72 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 4.3M SODIUM FORMATE, 0.1M SODIUM REMARK 280 CITRATE, PH 6.3, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 101.61250 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 54.12700 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 54.12700 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 50.80625 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 54.12700 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 54.12700 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 152.41875 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 54.12700 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 54.12700 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 50.80625 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 54.12700 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 54.12700 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 152.41875 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 101.61250 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 12870 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 48580 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -126.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -203.22500 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 REMARK 465 THR A 2 REMARK 465 ALA A 3 REMARK 465 THR A 4 REMARK 465 GLN A 5 REMARK 465 GLY A 6 REMARK 465 LYS A 7 REMARK 465 CYS A 8 REMARK 465 PRO A 9 REMARK 465 VAL A 10 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 CE1 TYR A 222 SD MET A 248 2.07 REMARK 500 CH2 TRP A 94 CE2 TYR A 222 2.15 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 ASP A 285 CB ASP A 285 CG 0.126 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG A 242 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 ASP A 322 CB - CG - OD1 ANGL. DEV. = 6.0 DEGREES REMARK 500 ARG A 327 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 ASP A 355 CB - CG - OD2 ANGL. DEV. = -5.5 DEGREES REMARK 500 ASP A 362 CB - CG - OD1 ANGL. DEV. = 6.0 DEGREES REMARK 500 ARG A 385 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG A 673 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASP A 73 71.42 -110.51 REMARK 500 PHE A 78 82.46 -158.48 REMARK 500 VAL A 193 44.85 35.91 REMARK 500 ASN A 200 35.25 70.75 REMARK 500 TYR A 222 -77.61 -129.44 REMARK 500 ASP A 229 42.44 34.52 REMARK 500 ASP A 233 93.68 -171.94 REMARK 500 ASN A 271 71.79 -115.26 REMARK 500 THR A 307 -88.85 -123.66 REMARK 500 ASP A 322 -177.35 -178.25 REMARK 500 ARG A 367 -141.74 -114.24 REMARK 500 LYS A 493 -18.94 -47.72 REMARK 500 GLU A 499 70.19 48.46 REMARK 500 GLN A 581 -147.78 -144.95 REMARK 500 HIS A 619 134.06 -39.27 REMARK 500 ALA A 652 52.75 -140.28 REMARK 500 SER A 680 -56.24 -124.76 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ALA A 15 THR A 16 -148.54 REMARK 500 GLU A 210 ASN A 211 -140.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 802 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY A 105 O REMARK 620 2 GLY A 107 O 94.3 REMARK 620 3 SER A 476 O 88.8 161.7 REMARK 620 4 HOH A 922 O 166.3 77.5 95.7 REMARK 620 5 HOH A1045 O 105.3 103.5 93.0 87.4 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEB A 801 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 263 NE2 REMARK 620 2 HEB A 801 NA 93.0 REMARK 620 3 HEB A 801 NB 91.6 89.9 REMARK 620 4 HEB A 801 NC 86.7 179.7 90.0 REMARK 620 5 HEB A 801 ND 89.0 90.1 179.4 90.0 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 803 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 264 O REMARK 620 2 THR A 315 OG1 79.6 REMARK 620 3 HIS A 317 O 118.5 81.9 REMARK 620 4 GLN A 320 O 96.2 157.3 80.6 REMARK 620 5 ASP A 322 OD2 157.7 112.9 82.5 78.9 REMARK 620 6 ASP A 322 OD1 103.7 109.2 137.8 93.5 55.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 804 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 354 O REMARK 620 2 HOH A1032 O 76.3 REMARK 620 3 HOH A1046 O 81.7 99.1 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEB A 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 802 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 803 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 804 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3WNU RELATED DB: PDB DBREF 3X16 A 1 720 UNP Q31MN3 KATG_SYNE7 1 720 SEQADV 3X16 PHE A 78 UNP Q31MN3 TRP 78 ENGINEERED MUTATION SEQRES 1 A 720 MET THR ALA THR GLN GLY LYS CYS PRO VAL MET HIS GLY SEQRES 2 A 720 GLY ALA THR THR VAL ASN ILE SER THR ALA GLU TRP TRP SEQRES 3 A 720 PRO LYS ALA LEU ASN LEU ASP ILE LEU SER GLN HIS ASP SEQRES 4 A 720 ARG LYS THR ASN PRO MET GLY PRO ASP PHE ASN TYR GLN SEQRES 5 A 720 GLU GLU VAL LYS LYS LEU ASP VAL ALA ALA LEU LYS GLN SEQRES 6 A 720 ASP LEU GLN ALA LEU MET THR ASP SER GLN ASP TRP PHE SEQRES 7 A 720 PRO ALA ASP TRP GLY HIS TYR GLY GLY LEU MET ILE ARG SEQRES 8 A 720 LEU THR TRP HIS ALA ALA GLY THR TYR ARG ILE ALA ASP SEQRES 9 A 720 GLY ARG GLY GLY ALA GLY THR GLY ASN GLN ARG PHE ALA SEQRES 10 A 720 PRO LEU ASN SER TRP PRO ASP ASN THR ASN LEU ASP LYS SEQRES 11 A 720 ALA ARG ARG LEU LEU TRP PRO ILE LYS GLN LYS TYR GLY SEQRES 12 A 720 ASN LYS LEU SER TRP ALA ASP LEU ILE ALA TYR ALA GLY SEQRES 13 A 720 THR ILE ALA TYR GLU SER MET GLY LEU LYS THR PHE GLY SEQRES 14 A 720 PHE ALA PHE GLY ARG GLU ASP ILE TRP HIS PRO GLU LYS SEQRES 15 A 720 ASP ILE TYR TRP GLY PRO GLU LYS GLU TRP VAL PRO PRO SEQRES 16 A 720 SER THR ASN PRO ASN SER ARG TYR THR GLY ASP ARG GLU SEQRES 17 A 720 LEU GLU ASN PRO LEU ALA ALA VAL THR MET GLY LEU ILE SEQRES 18 A 720 TYR VAL ASN PRO GLU GLY VAL ASP GLY ASN PRO ASP PRO SEQRES 19 A 720 LEU LYS THR ALA HIS ASP VAL ARG VAL THR PHE ALA ARG SEQRES 20 A 720 MET ALA MET ASN ASP GLU GLU THR VAL ALA LEU THR ALA SEQRES 21 A 720 GLY GLY HIS THR VAL GLY LYS CYS HIS GLY ASN GLY ASN SEQRES 22 A 720 ALA ALA LEU LEU GLY PRO GLU PRO GLU GLY ALA ASP VAL SEQRES 23 A 720 GLU ASP GLN GLY LEU GLY TRP ILE ASN LYS THR GLN SER SEQRES 24 A 720 GLY ILE GLY ARG ASN ALA VAL THR SER GLY LEU GLU GLY SEQRES 25 A 720 ALA TRP THR PRO HIS PRO THR GLN TRP ASP ASN GLY TYR SEQRES 26 A 720 PHE ARG MET LEU LEU ASN TYR ASP TRP GLU LEU LYS LYS SEQRES 27 A 720 SER PRO ALA GLY ALA TRP GLN TRP GLU PRO ILE ASN PRO SEQRES 28 A 720 ARG GLU GLU ASP LEU PRO VAL ASP VAL GLU ASP PRO SER SEQRES 29 A 720 ILE ARG ARG ASN LEU VAL MET THR ASP ALA ASP MET ALA SEQRES 30 A 720 MET LYS MET ASP PRO GLU TYR ARG LYS ILE SER GLU ARG SEQRES 31 A 720 PHE TYR GLN ASP PRO ALA TYR PHE ALA ASP VAL PHE ALA SEQRES 32 A 720 ARG ALA TRP PHE LYS LEU THR HIS ARG ASP MET GLY PRO SEQRES 33 A 720 LYS ALA ARG TYR ILE GLY PRO ASP VAL PRO GLN GLU ASP SEQRES 34 A 720 LEU ILE TRP GLN ASP PRO ILE PRO ALA GLY ASN ARG ASN SEQRES 35 A 720 TYR ASP VAL GLN ALA VAL LYS ASP ARG ILE ALA ALA SER SEQRES 36 A 720 GLY LEU SER ILE SER GLU LEU VAL SER THR ALA TRP ASP SEQRES 37 A 720 SER ALA ARG THR TYR ARG ASN SER ASP LYS ARG GLY GLY SEQRES 38 A 720 ALA ASN GLY ALA ARG ILE ARG LEU ALA PRO GLN LYS ASP SEQRES 39 A 720 TRP GLU GLY ASN GLU PRO ASP ARG LEU ALA LYS VAL LEU SEQRES 40 A 720 ALA VAL LEU GLU GLY ILE ALA ALA ALA THR GLY ALA SER SEQRES 41 A 720 VAL ALA ASP VAL ILE VAL LEU ALA GLY ASN VAL GLY VAL SEQRES 42 A 720 GLU GLN ALA ALA ARG ALA ALA GLY VAL GLU ILE VAL LEU SEQRES 43 A 720 PRO PHE ALA PRO GLY ARG GLY ASP ALA THR ALA GLU GLN SEQRES 44 A 720 THR ASP THR GLU SER PHE ALA VAL LEU GLU PRO ILE HIS SEQRES 45 A 720 ASP GLY TYR ARG ASN TRP LEU LYS GLN ASP TYR ALA ALA SEQRES 46 A 720 THR PRO GLU GLU LEU LEU LEU ASP ARG THR GLN LEU LEU SEQRES 47 A 720 GLY LEU THR ALA PRO GLU MET THR VAL LEU ILE GLY GLY SEQRES 48 A 720 LEU ARG VAL LEU GLY THR ASN HIS GLY GLY THR LYS HIS SEQRES 49 A 720 GLY VAL PHE THR ASP ARG GLU GLY VAL LEU THR ASN ASP SEQRES 50 A 720 PHE PHE VAL ASN LEU THR ASP MET ASN TYR LEU TRP LYS SEQRES 51 A 720 PRO ALA GLY LYS ASN LEU TYR GLU ILE CYS ASP ARG LYS SEQRES 52 A 720 THR ASN GLN VAL LYS TRP THR ALA THR ARG VAL ASP LEU SEQRES 53 A 720 VAL PHE GLY SER ASN SER ILE LEU ARG ALA TYR SER GLU SEQRES 54 A 720 LEU TYR ALA GLN ASP ASP ASN LYS GLU LYS PHE VAL ARG SEQRES 55 A 720 ASP PHE VAL ALA ALA TRP THR LYS VAL MET ASN ALA ASP SEQRES 56 A 720 ARG PHE ASP LEU ASP HET HEB A 801 43 HET NA A 802 1 HET NA A 803 1 HET NA A 804 1 HETNAM HEB HEME B/C HETNAM NA SODIUM ION HETSYN HEB HYBRID BETWEEN B AND C TYPE HEMES (PROTOPORPHYRIN IX HETSYN 2 HEB CONTAINING FE) FORMUL 2 HEB C34 H34 FE N4 O4 FORMUL 3 NA 3(NA 1+) FORMUL 6 HOH *155(H2 O) HELIX 1 1 SER A 21 TRP A 25 5 5 HELIX 2 2 ASN A 31 SER A 36 5 6 HELIX 3 3 ASN A 50 LYS A 56 1 7 HELIX 4 4 ASP A 59 THR A 72 1 14 HELIX 5 5 ALA A 80 HIS A 84 5 5 HELIX 6 6 TYR A 85 GLY A 98 1 14 HELIX 7 7 GLY A 112 PHE A 116 5 5 HELIX 8 8 PRO A 118 THR A 126 5 9 HELIX 9 9 ASN A 127 LEU A 135 1 9 HELIX 10 10 LEU A 135 GLY A 143 1 9 HELIX 11 11 ASN A 144 LEU A 146 5 3 HELIX 12 12 SER A 147 MET A 163 1 17 HELIX 13 13 GLY A 227 ASN A 231 5 5 HELIX 14 14 ASP A 233 ARG A 247 1 15 HELIX 15 15 ASN A 251 THR A 264 1 14 HELIX 16 16 ASN A 273 LEU A 277 5 5 HELIX 17 17 GLU A 280 ALA A 284 5 5 HELIX 18 18 ASP A 285 GLN A 289 5 5 HELIX 19 19 ILE A 301 ALA A 305 5 5 HELIX 20 20 ASN A 323 TYR A 332 1 10 HELIX 21 21 ARG A 352 LEU A 356 5 5 HELIX 22 22 THR A 372 ASP A 381 1 10 HELIX 23 23 ASP A 381 ASP A 394 1 14 HELIX 24 24 ASP A 394 ARG A 412 1 19 HELIX 25 25 PRO A 416 TYR A 420 5 5 HELIX 26 26 LEU A 430 ASP A 434 5 5 HELIX 27 27 ASP A 444 SER A 455 1 12 HELIX 28 28 SER A 458 ARG A 471 1 14 HELIX 29 29 ALA A 482 LEU A 489 5 8 HELIX 30 30 PRO A 491 ASN A 498 5 8 HELIX 31 31 GLU A 499 GLY A 518 1 20 HELIX 32 32 SER A 520 ALA A 540 1 21 HELIX 33 33 PHE A 565 GLU A 569 5 5 HELIX 34 34 GLY A 574 ASN A 577 5 4 HELIX 35 35 THR A 586 GLY A 599 1 14 HELIX 36 36 THR A 601 GLY A 616 1 16 HELIX 37 37 ASN A 618 THR A 622 5 5 HELIX 38 38 ASN A 636 THR A 643 1 8 HELIX 39 39 THR A 672 VAL A 677 1 6 HELIX 40 40 PHE A 678 SER A 680 5 3 HELIX 41 41 ASN A 681 ALA A 692 1 12 HELIX 42 42 ASN A 696 ASN A 713 1 18 SHEET 1 A 2 TYR A 203 THR A 204 0 SHEET 2 A 2 GLU A 208 LEU A 209 -1 O GLU A 208 N THR A 204 SHEET 1 B 2 LYS A 267 CYS A 268 0 SHEET 2 B 2 GLY A 312 ALA A 313 -1 O GLY A 312 N CYS A 268 SHEET 1 C 2 TRP A 334 LYS A 338 0 SHEET 2 C 2 TRP A 344 PRO A 348 -1 O GLU A 347 N GLU A 335 SHEET 1 D 2 HIS A 572 ASP A 573 0 SHEET 2 D 2 TRP A 578 LEU A 579 -1 O TRP A 578 N ASP A 573 SHEET 1 E 3 TYR A 647 PRO A 651 0 SHEET 2 E 3 TYR A 657 ASP A 661 -1 O GLU A 658 N LYS A 650 SHEET 3 E 3 VAL A 667 ALA A 671 -1 O LYS A 668 N ILE A 659 LINK O GLY A 105 NA NA A 802 1555 1555 2.26 LINK O GLY A 107 NA NA A 802 1555 1555 2.26 LINK NE2 HIS A 263 FE HEB A 801 1555 1555 1.97 LINK O THR A 264 NA NA A 803 1555 1555 2.26 LINK OG1 THR A 315 NA NA A 803 1555 1555 2.37 LINK O HIS A 317 NA NA A 803 1555 1555 2.27 LINK O GLN A 320 NA NA A 803 1555 1555 2.29 LINK OD2 ASP A 322 NA NA A 803 1555 1555 2.28 LINK OD1 ASP A 322 NA NA A 803 1555 1555 2.37 LINK O GLU A 354 NA NA A 804 1555 1555 2.39 LINK O SER A 476 NA NA A 802 1555 1555 2.28 LINK NA NA A 802 O HOH A 922 1555 1555 2.32 LINK NA NA A 802 O HOH A1045 1555 1555 2.42 LINK NA NA A 804 O HOH A1032 1555 1555 2.57 LINK NA NA A 804 O HOH A1046 1555 1555 2.43 CISPEP 1 ALA A 117 PRO A 118 0 -8.80 CISPEP 2 ALA A 490 PRO A 491 0 -4.79 SITE 1 AC1 21 GLY A 87 LEU A 88 ILE A 90 TRP A 94 SITE 2 AC1 21 VAL A 223 PRO A 225 LEU A 258 THR A 259 SITE 3 AC1 21 GLY A 262 HIS A 263 GLY A 266 LYS A 267 SITE 4 AC1 21 CYS A 268 HIS A 269 THR A 307 SER A 308 SITE 5 AC1 21 TRP A 314 ALA A 374 TRP A 406 HOH A 928 SITE 6 AC1 21 HOH A 947 SITE 1 AC2 6 GLY A 105 ARG A 106 GLY A 107 SER A 476 SITE 2 AC2 6 HOH A 922 HOH A1045 SITE 1 AC3 5 THR A 264 THR A 315 HIS A 317 GLN A 320 SITE 2 AC3 5 ASP A 322 SITE 1 AC4 3 GLU A 354 HOH A1032 HOH A1046 CRYST1 108.254 108.254 203.225 90.00 90.00 90.00 P 41 21 2 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.009238 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009238 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004921 0.00000